Prof Andy Lynch

Prof Andy Lynch

Professor of Statistics in Bioscience

Researcher profile

Phone
+44 (0)1334 463700
Email
andy.lynch@st-andrews.ac.uk

 

Biography

Professor Lynch joined the University of St Andrews in 2017 after 15 years at the University of Cambridge working in the Department of Public Health and Primary Care, The Department of Oncology and for the most part the Cancer Research UK Cambridge Institute. Divided between the Schools of Medicine, and Mathematics and Statistics, in St Andrews his research is divided between the development and application of analysis methods - typically in the context of cancer genomics.

Research areas

Professor Lynch works on the development and application of analysis methods for cancer sequencing data. This includes questions of experimental design within cancer genomics, fundamental questions regarding the extraction of data (and uncertainty) from modern biological methods, methods for answering biological and clinical questions in new ways, and applications to multiple cancer types (including Prostate, Glioblastoma,  Oesophageal, Breast, Renal, Ovarian and Lung). 

PhD supervision

  • Victor Velasco Pardo
  • Xiaoyue Yang
  • Naici Guo
  • Filippo Abbondanza

Selected publications

  • Analyses of non-coding somatic drivers in 2,658 cancer whole genomes

    PCAWG Drivers and Functional Interpretation Working Group, PCAWG Structural Variation Working Group, PCAWG Consortium, Rheinbay, E., Nielsen, M. M., Abascal, F., Wala, J. A., Shapira, O., Tiao, G., Hornshøj, H., Hess, J. M., Juul, R. I., Lin, Z., Feuerbach, L., Sabarinathan, R., Madsen, T., Kim, J., Mularoni, L., Shuai, S., Lanzós, A., Herrmann, C., Maruvka, Y. E., Shen, C., Amin, S. B., Bandopadhayay, P., Bertl, J., Boroevich, K. A., Busanovich, J., Carlevaro-Fita, J., Chakravarty, D., Chan, C. W. Y., Craft, D., Dhingra, P., Diamanti, K., Fonseca, N. A., Gonzalez-Perez, A., Guo, Q., Hamilton, M. P., Haradhvala, N. J., Hong, C., Isaev, K., Johnson, T. A., Juul, M., Kahles, A., Kahraman, A., Kim, Y., Komorowski, J., Kumar, K., Kumar, S., Lee, D., Lehmann, K-V., Li, Y., Liu, E. M., Lochovsky, L., Park, K., Pich, O., Roberts, N. D., Saksena, G., Schumacher, S., Sidiropoulos, N., Sieverling, L., Sinnott-Armstrong, N., Stewart, C., Tamborero, D., Tubio, J. M. C., Umer, H., Uusküla-Reimand, L., Wadelius, C., Wadi, L., Yao, X., Zhang, C-Z., Zhang, J., Haber, J. E., Hobolth, A., Imielinski, M., Kellis, M., Lawrence, M. S., von Mering, C., Nakagawa, H., Raphael, B., Rubin, M. A., Sander, C., Stein, L., Stuart, J. M., Tsunoda, T., Wheeler, D. A., Johnson, R., Reimand, J., Gerstein, M., Khurana, E., Campbell, P. J., López-Bigas, N., Weischenfeldt, J., Berouckhim, R., Martincorena, I., Pedersen, J. S., Getz, G. & Lynch, A. G., 6 Feb 2020, In : Nature. 578, 7793, p. 102-111 10 p.

    Research output: Contribution to journal ? Article

  • Different laterality indexes are poorly correlated with one another but consistently show the tendency of males and females to be more left- and right- lateralised, respectively

    Buenaventura Castillo, C., Lynch, A. & Paracchini, S., 22 Mar 2020, (Accepted/In press) In : Royal Society Open Science. 16 p.

    Research output: Contribution to journal ? Article

  • High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations

    PCAWG Transcriptome Working Group, PCAWG Structural Variation Working Group, PCAWG Consortium, Zhang, Y., Chen, F., Fonseca, N. A., He, Y., Fujita, M., Nakagawa, H., Zhang, Z., Brazma, A., Amin, S. B., Awadalla, P., Bailey, P. J., Brazma, A., Brooks, A. N., Calabrese, C., Chateigner, A., Cortés-Ciriano, I., Craft, B., Craft, D., Creighton, C. J., Davidson, N. R., Demircio?lu, D., Erkek, S., Fonseca, N. A., Frenkel-Morgenstern, M., Goldman, M. J., Greger, L., Göke, J., He, Y., Hoadley, K. A., Hou, Y., Huska, M. R., Kahles, A., Khurana, E., Kilpinen, H., Korbel, J. O., Lamaze, F. C., Lehmann, K. V., Li, C., Li, S., Li, X., Li, X., Liu, D., Liu, F., Liu, X., Marin, M. G., Markowski, J., Meyerson, M., Nandi, T., Nielsen, M. M. & Lynch, A. G., 5 Feb 2020, In : Nature Communications. 11, 14 p., 736.

    Research output: Contribution to journal ? Article

  • Pan-cancer analysis of whole genomes

    The ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium, Campbell, P. J., Getz, G., Korbel, J. O., Stuart, J. M., Jennings, J. L., Stein, L. D., Perry, M. D., Nahal-Bose, H. K., Ouellette, B. F. F., Li, C. H., Rheinbay, E., Nielsen, G. P., Sgroi, D. C., Wu, C. L., Faquin, W. C., Deshpande, V., Boutros, P. C., Lazar, A. J., Hoadley, K. A., Louis, D. N., Dursi, L. J., Yung, C. K., Bailey, M. H., Saksena, G., Raine, K. M., Buchhalter, I., Kleinheinz, K., Schlesner, M., Zhang, J., Wang, W., Wheeler, D. A., Ding, L., Simpson, J. T., O?Connor, B. D., Yakneen, S., Ellrott, K., Miyoshi, N., Butler, A. P., Royo, R., Shorser, S. I., Vazquez, M., Rausch, T., Tiao, G., Waszak, S. M., Rodriguez-Martin, B., Shringarpure, S., Wu, D. Y., Demidov, G. M., Delaneau, O. & Lynch, A. G., 6 Feb 2020, In : Nature. 578, 7793, p. 82-93 12 p.

    Research output: Contribution to journal ? Article

  • Deciphering the genomic, epigenomic and transcriptomic landscapes of pre-invasive lung cancer lesions

    Texeira, V. H., Pipinikas, C. P., Pennycuick, A., Lee-Six, H., Chandrasekharan, D., Beane, J., Morris, T. J., Karpathakis, A., Feber, A., Breeze, C. E., Ntolios, P., Hynds, R. E., Falzon, M., Capitanio, A., Carroll, B., Durrenberger, P. F., Hardavella, G., Brown, J. M., Lynch, A. G., Farmery, H., Paul, D. S., Chambers, R. C., McGranahan, N., Navani, N., Thakrar, R. M., Swanton, C., Beck, S., George, P. J., Spira, A., Campbell, P. J., Thirwell, C. & Janes, S. M., Mar 2019, In : Nature Medicine. 25, 3, p. 517-525 9 p.

    Research output: Contribution to journal ? Article

  • Multicenter validation of the CamGFR model for estimated glomerular filtration rate

    Williams, E. H., Connell, C. M., Weaver, J. M. J., Beh, I., Potts, H., Whitley, C. T., Bird, N., Al-Sayed, T., Fehr, M., Cathomas, R., Bertelli, G., Quinton, A., Lewis, P., Shamash, J., Wilson, P., Dooley, M., Poole, S., Mark, P. B., Bookman, M., Earl, H., Jodrell, D., Tavaré, S., Lynch, A. & Janowitz, T., Dec 2019, In : JNCI Cancer Spectrum. 3, 4, 4 p., pkz068.

    Research output: Contribution to journal ? Article

  • DESNT: a poor prognosis category of human prostate cancer

    Luca, B-A., Brewer, D. S., Edwards, D. R., Edwards, S., Whitaker, H. C., Merson, S., Dennis, N., Cooper, R. A., Hazell, S., Warren, A. Y., Eeles, R., Lynch, A. G., Ross-Adams, H., Lamb, A. D., Neal, D. E., Sethia, K., Mills, R. D., Ball, R. Y., Curley, H., Clark, J., Moulton, V. & Cooper, C. S., Dec 2018, In : European Urology Focus. 4, 6, p. 842-850 9 p.

    Research output: Contribution to journal ? Article

  • Sequencing of prostate cancers identifies new cancer genes, routes of progression and drug targets

    Wedge, D. C., Gundem, G., Mitchell, T., Woodstock, D. J., Martincorena, I., Ghori, M., Zamora, J., Butler, A., Whitaker, H., Kote-Jarai, Z., Alexandrov, L. B., Van Loo, P., Massie, C. E., Dentro, S., Warren, A. Y., Verrill, C., Berney, D. M., Dennis, N., Merson, S., Hawkins, S., Howat, W., Lu, Y-J., Lambert, A., Kay, J., Kremeyer, B., Karaszi, K., Camacho, N., Luxton, H., Marsden, L., Edwards, S., Matthews, L., Bo, V., Leongamornlert, D., McLaren, S., Ng, A., Yu, Y., Zhang, H., Dadaev, T., Thomas, S., Easton, D. F., Ahmed, M., Bancroft, E., Fisher, C., Livni, N., Nicol, D., Tavaré, S., Gill, P., Greenman, C., Khoo, V., Van As, N., Kumar, P., Ogden, C., Cahill, D., Thompson, A., Mayer, E., Rowe, E., Dudderidge, T., Gnanapragasam, V., Shah, N. C., Raine, K., Jones, D., Menzies, A., Stebbings, L., Teague, J., Hazell, S., Corbishley, C., CamCaP Study Group, de Bono, J., Attard, G., Isaacs, W., Visakorpi, T., Fraser, M., Boutros, P. C., Bristow, R. G., Workman, P., Sander, C., The TCGA Consortium, Hamdy, F. C., Futreal, A., McDermott, U., Al-Lazikani, B., Lynch, A. G., Bova, G. S., Foster, C. S., Brewer, D. S., Neal, D. E., Cooper, C. S. & Eeles, R. A., May 2018, In : Nature Genetics. 50, 5, p. 682-692 16 p.

    Research output: Contribution to journal ? Article

  • Telomerecat: a ploidy-agnostic method for estimating telomere length from whole genome sequencing data

    Farmery, J., Smith, M., NIHR BioResource - Rare Diseases & Lynch, A., 22 Jan 2018, In : Scientific Reports. 8, 17 p., 1300.

    Research output: Contribution to journal ? Article

  • The role of TET-mediated DNA hydroxymethylation in prostate cancer

    Smeets, E., Lynch, A. G., Prekovic, S., Van den Broeck, T., Moris, L., Helsen, C., Joniau, S., Claessens, F. & Massie, C. E., 15 Feb 2018, In : Molecular and Cellular Endocrinology. 462, A, p. 41-55

    Research output: Contribution to journal ? Review article

 

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